Rh6BG092400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0007568
Physical Location & Seq
Reverse (-)
14569633 .. 14574614
4982 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG092400.1

Sequence Viewer

Length: 1470 bp
ATGAAGATGGAGATGGTGGAGAAGGGTATATCGCCCGATGCTGTTACCTATTCATCACTAATTCAAGGTGTCTGTCAGCAAGGGAGACTAGTTGACGCTTGTGATCTGTTCCAAGAAATGATAAGTATGGGTTTGCGTCCAGATGAATTCACATACATAACCTTGATCAATGCTCAGTGCAAGGAAGGGGATTTGAACAAGGCTCTTCAGTTGAATGATGAAATGATAAAGAAAGGTTTCCTACCTGATGTTGTGACCTACAGTGTGCTTATCAATGAACTTAACAAACAAGCTCGGACAAGAGAAGCAAAGAAGCTTCTACTCAAGTTGTTTTATGATGACTCTGTCCCAGATGATGTCACATACAATACTCTAATAGAGAGCTGCACGAATGTTGAATTTAAGAGTGTGGTAGCCCTTGTAAAGGGATTCTGCATGAAGAAAGGGGATCAAGTTTTTGAAACAAAGGCATTGAATCTCTACAGGGAAATGTTGCTTTCTGGTTTTCTTCCTCATACTGTGACTGTTATTGCGCTGATTAAAGAACTTTTCACAGAGGGAATGAACAATGAACTGAGTCAAGTCATAGAGAACACTCTGAGGATCTGTGAACGTACTGATGCTGAGCTTGCAAAGCTACTTGTTGAAACAAACCATAAAGAAGGAAATATGGATGCAGTTTTTAATGTCCTTGGTGAAATGGCCAAGGATGGTCTCCTTCCAAATAGTGAAGCAAGCGCTTGTGCAGGGGGACAAATTACTTTACTGAAGTTATGGTGGATTGCTGCAATCAACCTTGTTCCTCCATTGCCATGTTCATCGGCCAATTTATTTGTGAAGATTCTTCATTTACCACTGACCTTTCCTTCACTCGCTGGAAAGGTCCTGATGAGTTCCTTCCGCTTCGCTCCCTCCGATGCCCTTCTCGCCGACAAAGCAATCACCTACCTCAAGCGCCACCCCCACAACCTCAACTCTCTCTCTTCCCATTTCACCCCTGAAGCCGCCTCCTGCGTACTCCTCAAGTCCCAATTCGACCAAAACCTAACCCTAAAGTTCCTCAGTTGGGCTCGCAACCACCACCGCTTCTTCACCTTCCAGAGCAAGTGCCTCGCCCTCCACATCCTCACCCGCTTCAAGCTCTACAAGTCCGCCCAGGCCCTCGCCGAGGACGTCGCCGTCAACACCTTCGACGACAGGGGCAATTTGGTCTTTCAGTGCCTCACGGACTCGCTGCAGGTCTGCAATTCCAGCTCGGCGGTTTTCGACTTGGTGGTGAAGTCTTACTCTCATTTGAATTTCGTTGACAAAGCTATTAACATCGTTAACTTAGCTAAAGCTCATGGATTTATGCCTGGTGTGCTTTCGTATAATGCGATTTTAGATGCAGTGATTAGGTCTAAAGGGTCTGTTCGGTTTGCTGAGGGTGTTCTTTTACTTCTGAAGGGATGGAAAATACTCAAAAGATGA

Protein Analysis

489

Amino Acids

54.55

Weight (kDa)

7.9

Isoelectric Point (pI)

35.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 4 - 26 5.1e-06 PPR repeat family
PPR_1 PF12854 8 - 40 2.6e-12 PPR repeat
PPR_2 PF13041 12 - 61 8.9e-16 PPR repeat family
PPR PF01535 15 - 45 2.2e-07 PPR repeat
PPR_3 PF13812 36 - 92 1.8e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 43 - 75 1.2e-09 PPR repeat
PPR_2 PF13041 50 - 95 1.6e-14 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1178
AatII GACGTC 1 cut(s) 1176
Acc36I ACCTGC 1 cut(s) 1228
AciI CCGC 6 cut(s) 901, 1005, 1084, 1132, 1152, 1259
AclWI GGATC 2 cut(s) 456, 611
AcoI YGGCCR 2 cut(s) 702, 822
AcsI RAATTY 3 cut(s) 146, 398, 1297
AcuI CTGAAG 4 cut(s) 191, 788, 1020, 1463
AcyI GRCGYC 1 cut(s) 1173
AfaI GTAC 2 cut(s) 616, 1017
AfeI AGCGCT 1 cut(s) 739
AfiI CCNNNNNNNGG 3 cut(s) 424, 1066, 1168
AgsI TTSAA 9 cut(s) 65, 196, 214, 398, 461, 475, 647, 1138, 1297
AhlI ACTAGT 1 cut(s) 88
AjnI CCWGG 2 cut(s) 1155, 1354
Alw26I GTCTC 2 cut(s) 79, 719
AlwI GGATC 2 cut(s) 456, 611
Aor51HI AGCGCT 1 cut(s) 739
AoxI GGCC 3 cut(s) 702, 822, 1158
ApeKI GCWGC 3 cut(s) 384, 785, 1234
ApoI RAATTY 3 cut(s) 146, 398, 1297
Asp700I GAANNNNTTC 1 cut(s) 236
AspLEI GCGC 3 cut(s) 535, 740, 957
AspS9I GGNCC 2 cut(s) 883, 1159
AsuHPI GGTGA 6 cut(s) 707, 934, 985, 1084, 1120, 1288
AvaII GGWCC 1 cut(s) 883
BalI TGGCCA 1 cut(s) 704
BanII GRGCYC 1 cut(s) 1072
BbvCI CCTCAGC 1 cut(s) 1422
BbvI GCAGC 3 cut(s) 371, 772, 1221
BccI CCATC 3 cut(s) 7, 704, 1443
BceAI ACGGC 1 cut(s) 1163
BcgI CGANNNNNNTGC 2 cut(s) 1093, 1127
BciT130I CCWGG 2 cut(s) 1157, 1356
BclI TGATCA 1 cut(s) 165
BcoDI GTCTC 2 cut(s) 79, 719
BcuI ACTAGT 1 cut(s) 88
BfaI CTAG 1 cut(s) 89
BfmI CTRYAG 3 cut(s) 259, 481, 1235
BfoI RGCGCY 2 cut(s) 741, 958
BfuAI ACCTGC 1 cut(s) 1228
BisI GCNGC 4 cut(s) 385, 786, 1005, 1235
BlpI GCTNAGC 1 cut(s) 624
BlsI GCNGC 4 cut(s) 386, 787, 1006, 1236
Bme1390I CCNGG 2 cut(s) 1157, 1356
Bme18I GGWCC 1 cut(s) 883
BmgT120I GGNCC 2 cut(s) 883, 1159
BmrFI CCNGG 2 cut(s) 1157, 1356
BmsI GCATC 5 cut(s) 28, 610, 664, 907, 1375
Bpu10I CCTNAGC 1 cut(s) 1422
Bpu1102I GCTNAGC 1 cut(s) 624
BpuEI CTTGAG 3 cut(s) 308, 935, 1007
BsaHI GRCGYC 1 cut(s) 1173
BsaI GGTCTC 1 cut(s) 719
BsaJI CCNNGG 4 cut(s) 691, 705, 1155, 1167
Bsc4I CCNNNNNNNGG 3 cut(s) 424, 1066, 1168
Bse3DI GCAATG 1 cut(s) 806
BseBI CCWGG 2 cut(s) 1157, 1356
BseDI CCNNGG 4 cut(s) 691, 705, 1155, 1167
BseGI GGATG 4 cut(s) 679, 715, 1122, 1454
BseLI CCNNNNNNNGG 3 cut(s) 424, 1066, 1168
BseMI GCAATG 1 cut(s) 806
BseMII CTCAG 6 cut(s) 188, 566, 590, 615, 1075, 1413
BseRI GAGGAG 1 cut(s) 1010
BseXI GCAGC 3 cut(s) 371, 772, 1221
BsgI GTGCAG 2 cut(s) 370, 765
BshFI GGCC 3 cut(s) 704, 824, 1160
BslFI GGGAC 3 cut(s) 332, 765, 1012
BslI CCNNNNNNNGG 3 cut(s) 424, 1066, 1168
BsmAI GTCTC 2 cut(s) 79, 719
BsmFI GGGAC 3 cut(s) 332, 765, 1012
BsnI GGCC 3 cut(s) 704, 824, 1160
Bso31I GGTCTC 1 cut(s) 719
Bsp1286I GDGCHC 1 cut(s) 1072
Bsp143I GATC 4 cut(s) 103, 165, 448, 603
Bsp1720I GCTNAGC 1 cut(s) 624
BspACI CCGC 6 cut(s) 901, 1005, 1084, 1132, 1152, 1259
BspANI GGCC 3 cut(s) 704, 824, 1160
BspCNI CTCAG 6 cut(s) 187, 567, 591, 616, 1074, 1414
BspMAI CTGCAG 1 cut(s) 1239
BspMI ACCTGC 1 cut(s) 1228
BspPI GGATC 2 cut(s) 456, 611
BspQI GCTCTTC 1 cut(s) 210
BspTNI GGTCTC 1 cut(s) 719
BsrDI GCAATG 1 cut(s) 806
BssECI CCNNGG 4 cut(s) 691, 705, 1155, 1167
BssMI GATC 4 cut(s) 103, 165, 448, 603
BssNI GRCGYC 1 cut(s) 1173
BssT1I CCWWGG 2 cut(s) 691, 705
Bst2UI CCWGG 2 cut(s) 1157, 1356
Bst4CI ACNGT 3 cut(s) 263, 520, 526
Bst6I CTCTTC 2 cut(s) 210, 988
BstACI GRCGYC 1 cut(s) 1173
BstC8I GCNNGC 3 cut(s) 630, 736, 1072
BstDEI CTNAG 7 cut(s) 174, 575, 599, 624, 1061, 1330, 1422
BstENI CCTNNNNNAGG 2 cut(s) 422, 1166
BstF5I GGATG 4 cut(s) 679, 715, 1122, 1454
BstH2I RGCGCY 2 cut(s) 741, 958
BstHHI GCGC 3 cut(s) 535, 740, 957
BstKTI GATC 4 cut(s) 106, 168, 451, 606
BstMAI GTCTC 2 cut(s) 79, 719
BstMBI GATC 4 cut(s) 103, 165, 448, 603
BstMWI GCNNNNNNNGC 6 cut(s) 629, 634, 926, 935, 1251, 1360
BstNI CCWGG 2 cut(s) 1157, 1356
BstSCI CCNGG 2 cut(s) 1155, 1354
BstSFI CTRYAG 3 cut(s) 259, 481, 1235
BstV1I GCAGC 3 cut(s) 371, 772, 1221
BstX2I RGATCY 1 cut(s) 603
BstYI RGATCY 1 cut(s) 603
BsuRI GGCC 3 cut(s) 704, 824, 1160
BtsCI GGATG 4 cut(s) 679, 715, 1122, 1454
BtsI GCAGTG 1 cut(s) 1395
BtsIMutI CAGTG 5 cut(s) 182, 268, 854, 1223, 1395
BveI ACCTGC 1 cut(s) 1228
Cac8I GCNNGC 3 cut(s) 630, 736, 1072
CfoI GCGC 3 cut(s) 535, 740, 957
Cfr13I GGNCC 2 cut(s) 883, 1159
CseI GACGC 2 cut(s) 104, 125
Csp6I GTAC 2 cut(s) 615, 1016
CviAII CATG 3 cut(s) 436, 813, 1343
CviQI GTAC 2 cut(s) 615, 1016
DdeI CTNAG 7 cut(s) 174, 575, 599, 624, 1061, 1330, 1422
DpnI GATC 4 cut(s) 105, 167, 450, 605
DpnII GATC 4 cut(s) 103, 165, 448, 603
DrdI GACNNNNNNGTC 1 cut(s) 1178
DseDI GACNNNNNNGTC 1 cut(s) 1178
EaeI YGGCCR 2 cut(s) 702, 822
Eam1104I CTCTTC 2 cut(s) 210, 988
EarI CTCTTC 2 cut(s) 210, 988
EciI GGCGGA 1 cut(s) 1141
Eco130I CCWWGG 2 cut(s) 691, 705
Eco24I GRGCYC 1 cut(s) 1072
Eco31I GGTCTC 1 cut(s) 719
Eco47I GGWCC 1 cut(s) 883
Eco47III AGCGCT 1 cut(s) 739
Eco57I CTGAAG 4 cut(s) 191, 788, 1020, 1463
EcoNI CCTNNNNNAGG 2 cut(s) 422, 1166
EcoO109I RGGNCCY 2 cut(s) 883, 1159
EcoRI GAATTC 1 cut(s) 146
EcoRII CCWGG 2 cut(s) 1155, 1354
EcoT14I CCWWGG 2 cut(s) 691, 705
EcoT38I GRGCYC 1 cut(s) 1072
ErhI CCWWGG 2 cut(s) 691, 705
FaeI CATG 3 cut(s) 439, 816, 1346
FaqI GGGAC 3 cut(s) 332, 765, 1012
FatI CATG 3 cut(s) 435, 812, 1342
FauI CCCGC 1 cut(s) 1139
FbaI TGATCA 1 cut(s) 165
Fnu4HI GCNGC 4 cut(s) 385, 786, 1005, 1235
FokI GGATG 4 cut(s) 686, 722, 1109, 1461
FriOI GRGCYC 1 cut(s) 1072
Fsp4HI GCNGC 4 cut(s) 385, 786, 1005, 1235
FspBI CTAG 1 cut(s) 89
GlaI GCGC 3 cut(s) 534, 739, 956
GluI GCNGC 4 cut(s) 385, 786, 1005, 1235
HaeII RGCGCY 2 cut(s) 741, 958
HaeIII GGCC 3 cut(s) 704, 824, 1160
HgaI GACGC 2 cut(s) 104, 125
HhaI GCGC 3 cut(s) 535, 740, 957
Hin1I GRCGYC 1 cut(s) 1173
Hin1II CATG 3 cut(s) 439, 816, 1346
Hin6I GCGC 3 cut(s) 533, 738, 955
HinP1I GCGC 3 cut(s) 533, 738, 955
HincII GTYRAC 4 cut(s) 94, 1183, 1306, 1327
HindII GTYRAC 4 cut(s) 94, 1183, 1306, 1327
HindIII AAGCTT 1 cut(s) 314
HinfI GANTC 6 cut(s) 341, 429, 475, 577, 841, 1229
HpaI GTTAAC 1 cut(s) 1327
HphI GGTGA 6 cut(s) 707, 934, 985, 1084, 1120, 1288
Hpy166II GTNNAC 5 cut(s) 94, 611, 1183, 1306, 1327
Hpy188I TCNGA 4 cut(s) 297, 600, 916, 1443
Hpy188III TCNNGA 3 cut(s) 140, 886, 1099
Hpy8I GTNNAC 5 cut(s) 94, 611, 1183, 1306, 1327
Hpy99I CGWCG 2 cut(s) 1178, 1196
HpyCH4III ACNGT 3 cut(s) 263, 520, 526
HpyCH4IV ACGT 2 cut(s) 613, 1173
HpyF10VI GCNNNNNNNGC 6 cut(s) 629, 634, 926, 935, 1251, 1360
HpyF3I CTNAG 7 cut(s) 174, 575, 599, 624, 1061, 1330, 1422
HpySE526I ACGT 2 cut(s) 613, 1173
Hsp92I GRCGYC 1 cut(s) 1173
Hsp92II CATG 3 cut(s) 439, 816, 1346
HspAI GCGC 3 cut(s) 533, 738, 955
Ksp22I TGATCA 1 cut(s) 165
KspAI GTTAAC 1 cut(s) 1327
Kzo9I GATC 4 cut(s) 103, 165, 448, 603
LguI GCTCTTC 1 cut(s) 210
LmnI GCTCC 1 cut(s) 913
Lsp1109I GCAGC 3 cut(s) 371, 772, 1221
LweI GCATC 5 cut(s) 28, 610, 664, 907, 1375
MaeI CTAG 1 cut(s) 89
MaeII ACGT 2 cut(s) 613, 1173
MaeIII GTNAC 4 cut(s) 43, 253, 358, 520
MalI GATC 4 cut(s) 105, 167, 450, 605
MboI GATC 4 cut(s) 103, 165, 448, 603
MboII GAAGA 8 cut(s) 16, 197, 451, 500, 836, 850, 975, 1081
MflI RGATCY 1 cut(s) 603
MhlI GDGCHC 1 cut(s) 1072
MlsI TGGCCA 1 cut(s) 704
MluCI AATT 9 cut(s) 60, 146, 398, 756, 826, 1031, 1204, 1246, 1297
MluNI TGGCCA 1 cut(s) 704
MlyI GAGTC 3 cut(s) 335, 586, 1223
Mox20I TGGCCA 1 cut(s) 704
MroXI GAANNNNTTC 1 cut(s) 236
MscI TGGCCA 1 cut(s) 704
MseI TTAA 6 cut(s) 282, 402, 540, 684, 1317, 1326
MslI CAYNNNNRTG 1 cut(s) 811
Msp20I TGGCCA 1 cut(s) 704
MspR9I CCNGG 2 cut(s) 1157, 1356
MvaI CCWGG 2 cut(s) 1157, 1356
MwoI GCNNNNNNNGC 6 cut(s) 629, 634, 926, 935, 1251, 1360
NdeII GATC 4 cut(s) 103, 165, 448, 603
NlaIII CATG 3 cut(s) 439, 816, 1346
NmeAIII GCCGAG 2 cut(s) 1192, 1235
NmuCI GTSAC 3 cut(s) 253, 358, 520
PciSI GCTCTTC 1 cut(s) 210
PcsI WCGNNNNNNNCGW 3 cut(s) 912, 1170, 1373
PdmI GAANNNNTTC 1 cut(s) 236
PfeI GAWTC 3 cut(s) 429, 475, 841
PflFI GACNNNGTC 1 cut(s) 344
PkrI GCNGC 4 cut(s) 386, 787, 1006, 1236
PleI GAGTC 3 cut(s) 335, 585, 1223
PpsI GAGTC 3 cut(s) 335, 585, 1223
PpuMI RGGWCCY 1 cut(s) 883
Psp5II RGGWCCY 1 cut(s) 883
Psp6I CCWGG 2 cut(s) 1155, 1354
PspGI CCWGG 2 cut(s) 1155, 1354
PspPI GGNCC 2 cut(s) 883, 1159
PspPPI RGGWCCY 1 cut(s) 883
PstI CTGCAG 1 cut(s) 1239
PsuI RGATCY 1 cut(s) 603
PsyI GACNNNGTC 1 cut(s) 344
RsaI GTAC 2 cut(s) 616, 1017
RsaNI GTAC 2 cut(s) 615, 1016
RseI CAYNNNNRTG 1 cut(s) 811
SapI GCTCTTC 1 cut(s) 210
SaqAI TTAA 6 cut(s) 282, 402, 540, 684, 1317, 1326
SatI GCNGC 4 cut(s) 385, 786, 1005, 1235
Sau3AI GATC 4 cut(s) 103, 165, 448, 603
Sau96I GGNCC 2 cut(s) 883, 1159
SchI GAGTC 3 cut(s) 335, 586, 1223
ScrFI CCNGG 2 cut(s) 1157, 1356
SduI GDGCHC 1 cut(s) 1072
SfaNI GCATC 5 cut(s) 28, 610, 664, 907, 1375
SfcI CTRYAG 3 cut(s) 259, 481, 1235
SinI GGWCC 1 cut(s) 883
SmiMI CAYNNNNRTG 1 cut(s) 811
SmlI CTYRAG 3 cut(s) 323, 950, 1022
SmoI CTYRAG 3 cut(s) 323, 950, 1022
SpeI ACTAGT 1 cut(s) 88
Sse9I AATT 9 cut(s) 60, 146, 398, 756, 826, 1031, 1204, 1246, 1297
SsiI CCGC 6 cut(s) 901, 1005, 1084, 1132, 1152, 1259
SspMI CTAG 1 cut(s) 89
StyD4I CCNGG 2 cut(s) 1155, 1354
StyI CCWWGG 2 cut(s) 691, 705
TaaI ACNGT 3 cut(s) 263, 520, 526
TaiI ACGT 2 cut(s) 616, 1176
TaqI TCGA 3 cut(s) 1035, 1191, 1266
TasI AATT 9 cut(s) 60, 146, 398, 756, 826, 1031, 1204, 1246, 1297
TauI GCSGC 1 cut(s) 1007
TfiI GAWTC 3 cut(s) 429, 475, 841
Tru1I TTAA 6 cut(s) 282, 402, 540, 684, 1317, 1326
Tru9I TTAA 6 cut(s) 282, 402, 540, 684, 1317, 1326
TscAI CASTG 5 cut(s) 182, 268, 861, 1223, 1395
TseFI GTSAC 3 cut(s) 253, 358, 520
TseI GCWGC 3 cut(s) 384, 785, 1234
Tsp45I GTSAC 3 cut(s) 253, 358, 520
TspGWI ACGGA 1 cut(s) 1241
TspRI CASTG 5 cut(s) 182, 268, 861, 1223, 1395
Tth111I GACNNNGTC 1 cut(s) 344
VpaK11BI GGWCC 1 cut(s) 883
XagI CCTNNNNNAGG 2 cut(s) 422, 1166
XapI RAATTY 3 cut(s) 146, 398, 1297
XmnI GAANNNNTTC 1 cut(s) 236
XspI CTAG 1 cut(s) 89
ZraI GACGTC 1 cut(s) 1174
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.